➔ Slides
Authors
Researchers on this project are metaproteomics informatics developers and users who communicate via mailing list, gitter, and GitHub to jointly define and develop the most useful tools to enable metaproteomics analysis. In December 2016, the researchers held an online Metaproteomics Contribution Fest to develop and implement metaproteomics-focused software tools. Prioritization of tasks resulted in identification of the following tool categories within the complex metaproteomics analytical pipeline:
1) Database generation tools using results from the 16S rRNA data/approach to define taxonomy lists and shotgun metagenome sequencing data (May et al J Proteome Res. 15:2697).
2) Peptide spectral matching tools such as SearchGUI /PeptideShaker and post-processing by MetaProteomeAnalyzer.
3) Taxonomic classification and functional characterization using UniPept and packaging and testing of DIAMOND to generate outputs for MEGAN analysis.
These developed tools are being made accessible through the Galaxy Toolshed and a publicly available metaproteomics gateway at NCGAS. Vetted tools and workflows are accessible and will be updated and tested on this Jetstream cloud computing infrastructure.
Our tools, workflows and resources are being promoted via publications, presentations and training workshops at scientific conferences.